2025-4-13- 7
Home > Archive>Volume 25, Issue 10, 2024 >1624-1636. DOI:10.13430/j.cnki.jpgr.20240408001
PDF HTML XML Export Cite reminder
Genetic Diversity Analysis and Core Germplasm Construction of Oryza rufipogon Griff. in Hainan
Author:
Affiliation:

1.Cereal Crops Institute， Hainan Academy of Agricultural Sciences/ Key Laboratory of Crop Genetics and Breeding of Hainan Province， Haikou 571100;2.Sanya Institute， Hainan Academy of Agricultural Sciences， Sanya 572025

Fund Project:

Foundation projects： Hainan Provincial Natural Science Foundation of China（321QN355）；Science and Technology Special Fund of Hainan Province（ZDYF2024XDNY165）；The Earmarked Fund for China Agriculture Research System（CARS-01-92）；China Key R&D Program Project（2021YFD1200102-01）；Basic Scientific Research Business Expenses of HAAS（HAAS2022TDYD04， HAAS2023TDYD07）

  • Article
    • | |
  • Metrics
    • |
  • Reference [35]
    • | | | |
  • Comments
    Abstract:

    In order to understand the genetic relationships among numerous materials of common wild rice in Hainan province and explore representative samples， this study used 32 pairs of SSR markers to conduct genetic diversity analysis and core germplasm construction on 2038 samples of Hainan common wild rice from 11 different cities and counties in Hainan province. The results showed that the average effective allele （Ne） was 2.479， the richness Shannon index （I） was 0.975， the Nei′s gene diversity （h） was 0.570， and the percentage of polymorphic loci was 96.27%， indicating that the genetic diversity of Hainan ordinary wild rice is very rich.There are differences in genetic diversity among Hainan common wild rice from different sources. Common wild rice from Lingao has the highest genetic diversity， while Qionghai common wild rice has the lowest genetic diversity， and its variation is mainly concentrated within the population. The analysis of population structure showed that when K=2， the Delta K value was the highest. 2038 ordinary wild rice resources from Hainan were divided into two groups. The subgroup Ⅰ has 1145 resources， which come from Haikou， Chengmai， Danzhou， Sanya， Wanning， Qionghai， Lingao， Lingshui， Ledong， and Dongfang， respectively. The subgroup Ⅱ has 893 resources， which come from Haikou， Wenchang and Chengmai， respectively.192 core germplasm of Hainan common wild rice were constructed using population first and multiple clustering methods， accounting for 9.42% of the total resources （2038）. The Shannon index （I） of the core germplasm was retained by 102.46%， and the Nei′s gene diversity （h） was retained by 104.39%， effectively reducing the genetic redundancy and duplication of genetic differences in the original germplasm. The core germplasm of Hainan common wild rice represents the genetic diversity and specificity of the original germplasm， and provides materials for the effective utilization of Hainan common wild rice resources.

    Reference
    [1] Zheng X M, Ge S. Ecological divergence in the presence of gene flow in two closely related Oryza species (Oryza rufipogon and O. nivara). Molecular Ecology, 2010, 19(12): 2439-2454
    [2] 柯学,陈越,殷富有,钟巧芳,Walid Ghidan,阚东扬,黄兴奇,程在全.普通野生稻在稻属中的分类进化及资源研究.分子植物育种, 2018,16(4):1363-1376Ke X, Chen Y, Yin F Y, Zhong Q F, Ghidan W, Kan D Y, Huang X Q, Cheng Z Q. Taxonomic evolution and resource research of Oryza rufipogon Griff. in phylogeny of Oryza and its advances. Molecular Plant Breeding, 2018, 16 (4):1363-1376
    [3] 孙佩甫.海南普通野生稻花器性状、结实特性及遗传多样性研究.海口:海南大学, 2015Sun P F. Study on floral traits,seed setting characteristics and genetic diversity of Hainan common wild rice (Oryza rufipogon Griff. ). Haikou: Hainan University, 2015
    [4] 黄娟,高利军,高菊,卿冬进,朱昌兰,周维永.亚洲6国普通野生稻群体遗传多样性分析.西南农业学报, 2019,32(2):232-240Huang J, Gao L J, Gao J, Qing D J, Zhu C L, Zhou W Y. Analysis of genetic diversity on populations of common wild rice (Oryza rufipogon Griff．) from 6 countries in Asia. Southwest China Journal of Agricultural Sciences, 2019, 32(2):232-240
    [5] 梁新霞.普通野生稻(Oryza rufipogon Griff.)和尼瓦拉野生稻(O.nivara Sharma et Shastry)的群体遗传结构及其交配系统研究.北京:中国农业科学院, 2017Liang X X. Study on genetic structure of Oryza rufipogon and O.nivara sharma et shastry and their mating systems. Beijing: Chinese Academy of Agricultural Sciences, 2017
    [6] 翟李楠,唐清杰,周世圳,周帮纪,云勇,王惠艰,韩义胜,邢福能,严小微.海南普通野生稻稻瘟病抗性鉴定与评价.植物遗传资源学报, 2024,25(1):39-51Zhai L N, Tang Q J, Zhou S Z, Zhou B J, Yun Y, Wang H J, Han Y S, Xing F N, Yan X W. Identification and evaluation of resistance to rice blast in Oryza rufipogon Griff.in Hainan province. Journal of Plant Genetic Resources, 2024, 25(1):39-51
    [7] 李栋.海南普通野生稻对白叶枯病抗性评价与分子鉴定.海口:海南大学, 2017Li D. Resistance evaluation and molecular identification of Hainan common wild rice ( Oryza rufipogon Griff. ) to bacterial blight. Haikou: Hainan University, 2017
    [8] 唐清杰,王效宁,邢福能,徐靖,严小微.海南普通野生稻耐旱和耐盐资源的鉴定与评价.江苏农业科学, 2016,44(11):96-98Tang Q J, Wang X N, Xing F N, Xu J, Yan X W. Identification and evaluation of drought tolerance and salt tolerance resources of common wild rice in Hainan. Jiangsu Agricultural Sciences, 2016,44(11):96-98
    [9] 唐清杰,严小微,徐靖,熊怀阳,邢福能.海南普通野生稻资源不同生长期耐旱性鉴定与筛选.福建农业学报, 2017,32(2):130-133Tang Q J, Yan X W, Xu J, Xiong H Y, Xing F N. Identification and selection of Hainan-indigenous drought-resistant germplasms of Oryza rufipogon Griff.. Fujian Journal of Agricultural Sciences, 2017, 32(2):130-133
    [10] 徐靖,王效宁,韩义胜,熊怀阳,严小微.海南普通野生稻OrERF1的克隆和表达分析.生命科学研究,2014,18(4):299-303Xu J, Wang X N, Han Y S, Xiong H Y, Yan X W. Cloning and expression analysis of OrERF1 from Hainan common wild rice (Oryza rufipogon Griff.). Life Science Research, 2014, 18(4):299-303
    [11] 徐靖,严小微,熊怀阳,朱红林,韩义胜.海南普通野生稻OrNAC5的克隆和表达分析.热带作物学报,2014,35(9):1752-1756Xu J, Yan X W,Xiong H Y, Zhu H L, Han Y S. Cloning and expression analysis of OrNAC5 from Hainan common wild rice (Oryza rufipogon). Chinese Journal of Tropical Crops, 2014, 35(9):1752-1756
    [12] Tanksley S D, Mccouch S R. Seed banks and molecular maps: Unlocking gentic potential from the wild. Science, 1997, 277:1063-1066
    [13] Frankel O H, Brown A H D. Plant genetic resources today:A critical appraisal//Holden J H W, Williams J T. Crop gentic resources: Conservation and evaluation.London: George Allen & Unwin (Publishers) Ltd, 1984:249-257
    [14] 顾晓振.我国辣椒种质资源遗传多样性分析及核心种质构建的研究.北京:中国农业科学院,2016Gu X Z. The research of genetic diversity of pepper (Capsicum spp.) germplasms of China and core collection construction. Beijing: Chinese Academy of Agricultural Sciences, 2016
    [15] 李杜娟.粤东普通野生稻遗传多样性研究及初级核心种质构建.乌鲁木齐:新疆农业大学,2012Li D J. Study on the genetic diversity and establishment of precore collection of common wild rice (Oryza rufipogon Griff.) in easten area of Guangdong province in China.Urumqi: Xinjiang University, 2012
    [16] Brown A H D, Grace J P, Speer S S. Designation of a “core”collection of perennial Glycine. Soybean Genetics Newsletter, 1987, 14:59-70
    [17] Van Hintum T J L. Comparison of marker systems and construction of a core collection in a pedigree of European spring barley. Theoretical and Applied Genetics, 1994, 89:991-997
    [18] 李自超,张洪亮,曾亚文,杨忠义,申时全,孙传清,王象坤.云南地方稻种资源核心种质取样方案研究.中国农业科学,2000,33(5):1-7Li Z C, Zhang H L, Zeng Y W, Yang Z Y, Shen S Q, Sun C Q, Wang X K. Study on sampling schemes of core collection of local varieties of rice in Yunnan, China. Scientia Agricultura Sinica, 2000, 33(5):1-7
    [19] 潘英华,徐志健,梁云涛.广西普通野生稻群体结构解析与核心种质构建.植物遗传资源学报,2018,19(3):498-509Pan Y H, Xu Z J, Liang Y T. Genetic structure and core collection of common wild rice (Oryza rufipogon Griff.) in Guangxi. Journal of Plant Genetic Resources, 2018, 19(3):498-509
    [20] 赵璐.宁夏和新疆水稻种质资源遗传多样性分析及核心种质构建.银川:宁夏大学,2018Zhao L. Analysis of genetic diversity and establishment of core collection of rice germplasm in Ningxia and Xinjiang. Yinchuan: Ningxia University, 2018
    [21] 薛艳霞,梁燕理,冯璇,黄金艳,刘芳,覃宝祥,邱永福,李容柏.广西普通野生稻遗传多样性中心的确定与核心种质构建.华南农业大学学报,2016,37(5):24-30Xue Y X, Liang Y L, Feng X, Huang J Y, Liu F, Qin B X, Qiu Y F, Li R B. Center of genetic diversity and core collection of common wild rice,Oryza rufipogon Griff. in Guangxi. Journal of South China Agricultural University, 2016, 37(5):24-30
    [22] 王一平,魏兴华,袁筱萍,余汉勇,徐群,汤圣祥.海南普通野生稻自然居群间遗传多样性的微卫星分析.中国水稻科学,2007(6):573-578Wang Y P, Wei X H, Yuan X P, Yu H Y, Xu Q, Tang S X. Analysis on genetic diversity of natural populations of Oryza rufipogon distributed in Hainan province by SSR markers. Chinese Journal Rice Science, 2007(6):573-578
    [23] 王效宁,韩东飞,云勇,孟卫东,严小微,杨庆文.利用SSR标记分析海南普通野生稻的遗传多样性.植物遗传资源学报,2007, 8(2):184-188Wang X N, Han D F, Yun Y, Meng W D, Yan X W, Yang Q W. Genetic diversity of Oryza rufipogin Griff. in Hainan province with SSR markers. Journal of Plant Genetic Resources, 2007, 8(2):184-188
    [24] 齐兰,王效宁,张吉贞,唐清杰,孟卫东,严小微.利用SRAP标记研究海南野生稻的遗传多样性与遗传分化.植物遗传资源学报,2013,14(3):402-406Qi L, Wang X N, Zhang J Z, Tang Q J, Meng W D, Yan X W. Study on genetic diversity and differentiation of three wild rice species in Hainan using SRAP markers. Journal of Plant Genetic Resources, 2013, 14(3):402-406
    [25] Yeh F C, Boyle T J B. Population genetic analysis of codominant and dominant markers and quantitative traits. Belgian Journa of Botany, 1997, 130:129-157
    [26] Peakall R O D, Smouse P E. GENALEX 6: Genetic analysis in excel. Population genetic software for teaching and research. Molecular Ecology Notes, 2006, 6:288-295
    [27] Hu J, Zhu J, Xu H M. Methods of constructing core collections by stepwise clustering with three sampling strategies based on the genotypic values of crops．Theoretical and Applied Genetics, 2000, 101(1/2):264-268
    [28] 黎毛毛,黄永兰,余丽琴,王记林,芦明,熊玉珍,束爱萍,范志洁,万建林.利用SSR标记构建江西稻种资源核心种质库的研究.植物遗传资源学报,2012,13(6):952-957Li M M, Huang Y L, Yu L Q, Wang J L, Lu M, Xiong Y Z, Shu A P, Fan Z J, Wan J L. Development of a core collection for Jiangxi traditional rice germplasm by SSR markers. Journal of Plant Genetic Resources, 2012, 13(6):952-957
    [29] Rousset F. Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics, 1997, 145(4):1219-1228
    [30] 陈玲,殷富有,李维蛟,李定琴,张敦宇,钟巧芳,陈越,柯学,黄兴奇,程在全.云南三种野生稻遗传多样性和系统进化研究.中国稻米,2014,20(3):30-35Chen L, Yin F Y, Li W J, Li D Q, Zhang D Y, Zhong Q F, Chen Y, Ke X, Huang X Q, Cheng Z Q. Study on genetic diversity and phylogeny evolution of three wild rice species in Yunnan. Chinese rice, 2014, 20(3):30-35
    [31] Gao L Z. Population structure and conservation genetics of wild rice Oryza rufipogon (Poaceae): A region-wild perspective from microsatellite variation. Molecular Ecology, 2004,13:1009-1024
    [32] 陈良兵,李 迪,朱汝财,蒋向辉,吴海滨,李义珍,曹兵.海南普通野生稻琼海居群与三亚居群的遗传分化.分子植物育种,2006,4(2) :189-193Chen L B, Li D, Zhu R C, Jiang X H, Wu H B, Li Y Z, Cao B. The genetic differentiation of common wild rice populations between Qionghai and Sanya in Hainan island. Molecular Plant Breeding, 2006, 4(2):189-193
    [33] 韩东飞. 中国普通野生稻(Oryza rufipogon Griff.)的遗传多样性研究及栽培稻起源探讨.北京:中国农业科学院,2006Han D F. Study on the genetic diversity of wild rice (Oryza rufipogon Griff.) in China and the origin of cultivated rice. Beijing: Chinese Academy of Agricultural Sciences, 2006
    [34] 杨庆文,黄娟.中国普通野生稻遗传多样性研究进展.作物学报,2013,39(4):580-588Yang Q W, Huang J. Research progress on genetic diversity of Oryza rufipogon in China. Acta Agronomica Sinica, 2013, 39(4):580-588
    [35] 陈雨,潘大建,杨庆文,刘斌,范芝兰,陈建酉,李晨.广东高州野生稻应用核心种质取样策略.作物学报,2009,35(3):459-466Chen Y, Pan D J, Yang Q W, Liu B, Fan Z L, Chen J Y, Li C. Sampling strategy for an applied core collection of Gaozhou wild rice (Oryza rufipogon Griff.) in Guangdong, China. Acta Agronomica Sinica,2009,35(3):459-466
    Related
    Cited by
    Comments
    Comments
    分享到微博
    Submit
Get Citation

Copy
Share
Article Metrics
  • Abstract:116
  • PDF: 1309
  • HTML: 76
  • Cited by: 0
History
  • Received:April 08,2024
  • Online: October 30,2024
Article QR Code
You are the 612641th visitor 京ICP备09069690号-23
® 2025 All Rights Reserved
Supported by:Beijing E-Tiller Technology Development Co., Ltd.
Firefox, Chrome, IE10, IE11 are recommended. Other browsers are not recommended.